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Oryza sativa Japonica Group vs Oryza sativa (Geng/Japonica-sbtrp var. Chao Meo) Synteny results

The syntenic regions between Oryza sativa Japonica Group (Oryza sativa Japonica Group, IRGSP-1.0) and Oryza sativa (Geng/Japonica-sbtrp var. Chao Meo) (Oryza sativa tropical japonica subgroup, Os132278RS1) were extracted from their pairwise alignment in Ensembl Plants release 111. We look for stretches where the alignment blocks are in synteny. The search is run in two phases. In the first one, syntenic alignments that are closer than 200 kbp are grouped. In the second phase, the groups that are in synteny are linked provided that no more than 2 non-syntenic groups are found between them and they are less than 3Mbp apart.

Configuration parameters

No configuration parameters are available.

Statistics over 17 synteny blocks

Genome coverage (bp) Coding exon coverage (bp)
Oryza sativa Japonica Group

Uncovered: 3,651,602 out of 375,049,285
Covered: 371,397,683 out of 375,049,285

Uncovered: 198,524 out of 34,818,902
Covered: 34,620,378 out of 34,818,902
Oryza sativa (Geng/Japonica-sbtrp var. Chao Meo)

Uncovered: 8,836,778 out of 383,243,376
Covered: 374,406,598 out of 383,243,376

Uncovered: 636,181 out of 42,807,831
Covered: 42,171,650 out of 42,807,831